Brief Description

The Bioinformatics Laboratory was founded in 2015. The research focus of the laboratory is to analyze bio-data from various sources and develop new computational tools. The group is situated in the 2nd floor of the new building of the Department of Biochemistry and Biotechnology.

Research Interests

  • Viral and Bacterial Bioinformatics
  • Machine learning and prediction
  • Statistical analyses
  • Protein Interactions
  • Membrane Transporters
  • Transcription factor dimerization


  1. Teaching & Research Staff
  2. PhD Students
    • Marios Nikolaidis

Ερευνητικά Προγράμματα

  • 2014 – 2015: Aristeia II national research framework for the Filtering, Annotation and Bioinformatics analyses of high-throughput Phosphoproteomic data (FAB-Phos). Principal Investigator: Dr. Amoutzias.
  • 2011 – 2012: Processing and analysis of human genomic and phosphoproteomic data. Funded by the Research Committee of the University of Thessaly. Principal Investigator: Dr. Amoutzias.
  • 2008 – 2010: EMBO long-term postdoctoral fellowship (ALTF-930-2007).


Selected publications

  1. Ntountoumi C, Vlastaridis P, Mossialos D, Stathopoulos C, Iliopoulos I, Promponas V, Oliver SG, Amoutzias GD.Low complexity regions in the proteins of prokaryotes perform important functional roles and are highly conserved.Nucleic Acids Res. 2019 Sep 4. pii: gkz730. doi: 10.1093/nar/gkz730.
  2. Vlastaridis P, Kyriakidou P, Chaliotis A, Van de Peer Y, Oliver SG, Amoutzias GD. Estimating the total number of phosphoproteins and phosphorylation sites in eukaryotic proteomes. Gigascience. 2017 Feb 1;6(2):1-11. doi: 10.1093/gigascience/giw015. PMID:28327990
  3. Chaliotis A, Vlastaridis P, Mossialos D, Ibba M, Becker HD, Stathopoulos C and Amoutzias GD. The complex evolutionary history of aminoacyl-tRNA synthetases. Nucleic Acids Res. 2017 Feb 17;45(3):1059-1068.
  4. Amoutzias GD, He Y, Lilley KS, Van de Peer Y, Oliver SG. Evaluation and properties of the budding yeast phosphoproteome. Mol Cell Proteomics. 2012 Jun;11(6):M111.009555.
  5. Cock MJ, Sterck L, Rouzé P, Scornet D, Allen AE, Amoutzias G, et al. The Ectocarpus genome and the independent evolution of multicellularity in brown algae. Nature. 2010 Jun 3;465(7298):617-21.
  6. Amoutzias GD, He Y, Gordon J, Mossialos D, Oliver SG, Van de Peer Y. Posttranslational regulation impacts the fate of duplicated genes. Proc Natl Acad Sci U S A. 2010 Feb 16;107(7):2967-71.
  7. Amoutzias GD, Robertson DL, Van de Peer Y, Oliver SG. Choose your partners: Dimerization in eukaryotic transcription factors. Trends Biochem Sci. 2008 May;33(5):220-9.
  8. Amoutzias G, Van de Peer Y. Together we stand: genes cluster to coordinate regulation. Dev Cell. 2008 May;14(5):640-2.
  9. Pinney JW, Amoutzias GD, Rattray M, Robertson DL. Reconstruction of ancestral protein interaction networks for the bZIP transcription factors. Proc Natl Acad Sci U S A. 2007 Dec 18;104(51):20449-53
  10. Amoutzias G, Veron A, Weiner A, Robinson-Rechavi M, Bornberg-Bauer E, Oliver S, Robertson D. One Billion Years of bZIP Transcription Factor Evolution: Conservation and Change in Dimerization, and DNA-Binding Site Specificity. Mol Biol Evol. 2006 Dec 28.
  11. Amoutzias GD, Robertson DL, Oliver SG, Bornberg-Bauer E. Convergent evolution of gene networks by single-gene duplications in higher eukaryotes. EMBO Rep. 2004 Mar;5(3):274-9.


Full Publication List:

PhD Thesis

  1. Panayotis Vlastaridis: Bioinformatics Analysis, Management and Organization of Biological Data related to Post-Translational Regulation. (graduated in 2020)


  • Bioinformatics analyses, Machine Learning and predictions from Biological data, statistical analysis.

Bioinformatics Laboratory

Department of Biochemistry and Biotechnology (2nd Floor)
University of Thessaly
Viopolis, 41500 – Larissa



Ιστοσελίδα Εργαστηρίου